Table 2.
Comparative analysis of virulence properties of protein variants identified from Indian SARS-CoV-2 isolates.
| Genotype | Isolate | Protein | Mutation | Cellular Process |
Metabolism |
Virulence factors |
|||
|---|---|---|---|---|---|---|---|---|---|
| Ref. | Var. | Ref. | Var. | Ref. | Var. | ||||
| 1 | IND/29 (Kerala) | Nsp2 | I671T | −2.72165 | −2.72165 | 3.304706 | 3.30470 | −3.39956 | −3.39956 |
| PLPro | P2144S | −3.81331 | −3.81331 | −3.09635 | −3.09635 | 0.135194 | 0.135194 | ||
| RdRp | A4798V | 1.227022 | 1.22702 | −2.16893 | −2.16893 | 0.960535 | 0.960535 | ||
| Spike | R407I | 1.492872 | 1.492872 | −1.25244 | −1.25244 | −0.69898 | −0.69898 | ||
| 2 | IND/166 (Kerala) | Nsp2 | I476V | −2.72165 | −3.87946 | 3.304706 | 3.62299 | −3.39956 | −4.20081 |
| Helicase | T5538I | −0.54011 | −0.44787 | 0.931417 | 1.10038 | 1.304757 | 0.92286 | ||
| Spike | A930V | 1.492872 | 1.246268 | −1.25244 | −0.7755 | −0.69898 | −0.99728 | ||
| Orf8 | L84S | 0.947547 | 0.947547 | 0.551035 | 0.551035 | −0.30211 | −0.30211 | ||
| 3 | GMCKN318 (Telangana: Hyderabad) | RdRp | P4715L | 1.227022 | 1.227022 | −2.16893 | −2.16893 | 0.960535 | 0.960535 |
| Spike | D614G | 1.492872 | 1.492872 | −1.25244 | −1.25244 | −0.69898 | −0.69898 | ||
| 4 | GBRC97b (Himachal Pradesh: Una) | Nsp2 | L204F | −2.72165 | −2.0011 | 3.304706 | 3.233755 | −3.39956 | −3.00631 |
| PLPro | A1812D | −3.81331 | −3.81331 | −3.09635 | −3.09635 | 0.135194 | 0.135194 | ||
| Nsp6 | L3606F | 1.988548 | 1.988548 | −0.29145 | −0.29145 | −0.91113 | −0.91113 | ||
| RdRp | K4451 N | 1.227022 | 1.227022 | −2.16893 | −2.16893 | 0.960535 | 0.960535 | ||
| P4715L | |||||||||
| Helicase | P5624L | −0.54011 | −0.32021 | 0.931417 | 0.974854 | 1.304757 | 1.244815 | ||
| Exonuclease | K6274 N | 0.205947 | 0.205947 | −1.91813 | −1.91813 | 1.812892 | 1.812892 | ||
| Spike | D614G | 1.492872 | 1.492872 | −1.25244 | −1.25244 | −0.69898 | −0.69898 | ||
| N | R203K | 0.766355 | 0.766355 | 0.788503 | 0.788503 | −0.85619 | −0.85619 | ||
| G204R | |||||||||
| 5 | GBRC98 (Himachal Pradesh: Una) | Nsp2 | G519S | −2.72165 | −2.72165 | 3.304706 | 3.304706 | −3.39956 | −3.39956 |
| PLPro | S2015R | −3.81331 | −3.81331 | −3.09635 | −3.09635 | 0.135194 | 0.135194 | ||
| T2016K | |||||||||
| P2739L | |||||||||
| Nsp6 | L3606F | 1.988548 | 1.988548 | −0.29145 | −0.29145 | −0.91113 | −0.91113 | ||
| RdRp | A4489V | 1.227022 | 1.488159 | −2.16893 | −2.84141 | 0.960535 | 0.90483 | ||
| Spike | Q677H | 1.492872 | 1.492872 | −1.25244 | −1.25244 | −0.69898 | −0.69898 | ||
| N | P13L | 0.766355 | 1.145885 | 0.788503 | 0.258568 | −0.85619 | −0.76989 | ||
| A152S | |||||||||
| 6 | GBRC275b (Gujarat: Surat) | Exonuclease | W6152R | 0.205947 | 0.205947 | −1.91813 | −1.91813 | 1.812892 | 1.812892 |
| Spike | L54F | 1.492872 | 1.492872 | −1.25244 | −1.25244 | −0.69898 | −0.69898 | ||
| D614G | |||||||||
| H1088R | |||||||||
| F1089V | |||||||||
| 7 | GBRC258b (Gujarat: Gondal) | 2′-O-MTase | D6900Y | 1.464238 | 1.464238 | −0.14461 | −0.14461 | −0.21774 | −0.21774 |
| 8 | GBRC245 (Gujarat: Modasa) | Orf3a | P42R | 1.952861 | 1.952861 | 0.104934 | 0.104934 | −0.83548 | −0.83548 |
| Q57H | |||||||||
| 9 | GBRC273b (Gujarat: Choryasi) | N | S202 N | 0.766355 | 0.766355 | 0.788503 | 0.788503 | −0.85619 | −0.85619 |
| 10 | GBRC242 (Gujarat: Himatnagar) | 3CLPro | V3475F | 0.521603 | 0.534629 | −0.90669 | −1.33277 | 1.521026 | 1.458814 |
| 11 | GBRC239 (Gujarat: Gandhinagar) | Exonuclease | N5928H | 0.205947 | 0.205947 | −1.91813 | −1.91813 | 1.812892 | 1.812892 |
| 12 | GBRC244 (Gujarat: Ahmadabad) | N | S194L | 0.766355 | 1.362327 | 0.788503 | 0.237112 | −0.85619 | −0.82981 |
The green shadow indicates the predicted property of each protein.